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kpop
|
public |
An assembly-free and scalable method for the comparative analysis of microbial genomes, based on full k-mer spectra and dataset-specific transformations.
|
2024-05-09 |
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yaggo
|
public |
Yaggo is a tool to generate command line parsers for C++. Yaggo stands for "Yet Another GenGetOpt" and is inspired by GNU Gengetopt.
|
2024-05-09 |
|
bioconductor-cohcap
|
public |
CpG Island Analysis Pipeline for Illumina Methylation Array and Targeted BS-Seq Data
|
2024-05-09 |
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instrain
|
public |
Calculation of strain-level metrics
|
2024-05-09 |
|
cgelib
|
public |
This package will in time replace the cgecore package. The package contains classes and functions intended to be utilized across the CGE tools.
|
2024-05-08 |
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snakefmt
|
public |
The uncompromising Snakemake code formatter
|
2024-05-08 |
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rebar
|
public |
Genomic recombination detection using mutational barcodes.
|
2024-05-08 |
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tadrep
|
public |
TaDRep: Targeted Detection and Reconstruction of Plasmids
|
2024-05-07 |
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bioconductor-coregnet
|
public |
CoRegNet : reconstruction and integrated analysis of co-regulatory networks
|
2024-05-07 |
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r-workflowscriptscommon
|
public |
Common functions for making R function wapper scripts. Functions in R packages are hard to call when building workflows outside of R, so this package is used by other packages (e.g. r-seurat-scripts) to add sets of simple wrappers with robust argument parsing.
|
2024-05-07 |
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mockinbird
|
public |
A fully automatic and reproducible PAR-CLIP analysis pipeline
|
2024-05-07 |
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pygenometracks
|
public |
Standalone program and library to plot beautiful genome browser tracks.
|
2024-05-07 |
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squigualiser
|
public |
Visualise ONT raw signals
|
2024-05-06 |
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seqlogo
|
public |
Python port of the R Bioconductor `seqlogo` package
|
2024-05-03 |
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genotyphi
|
public |
Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)
|
2024-05-03 |
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favites_lite
|
public |
FAVITES-Lite: A lightweight framework for viral transmission and evolution simulation
|
2024-05-03 |
|
dragonflye
|
public |
Microbial assembly pipeline for Nanopore reads
|
2024-05-03 |
|
microview
|
public |
Generate reports from taxonomic classification data
|
2024-05-03 |
|
ddocent
|
public |
dDocent is an interactive bash wrapper to QC, assemble, map, and call SNPs from all types of RAD data
|
2024-05-03 |
|
trimnami
|
public |
Read-trimming pipelines for multiple samples
|
2024-05-02 |
|
bedgovcf
|
public |
A simple tool to convert BED files to VCF files
|
2024-05-02 |
|
gimbleprep
|
public |
Preprocess fasta, bam and vcf files ready to be used by gimble
|
2024-05-01 |
|
mitos
|
public |
MITOS is a tool for the annotation of metazoan mitochondrial genomes.
|
2024-05-01 |
|
recon
|
public |
No Summary
|
2024-05-01 |
|
hicmatrix
|
public |
Library to manage Hi-C matrices for HiCExplorer and pyGenomeTracks
|
2024-04-30 |
|
ncbi-datasets-pylib
|
public |
Easily gather data from across NCBI databases
|
2024-04-29 |
|
riassigner
|
public |
GC-MS retention index calculation
|
2024-04-29 |
|
ripcal
|
public |
RIPCAL is used for the bioinformatic analysis of repeat-induced point mutation (RIP) in fungal genome sequences
|
2024-04-29 |
|
perl-bio-kmer
|
public |
A perl module for helping with kmer analysis.
|
2024-04-26 |
|
radiant
|
public |
Annotate proteomes with protein domains
|
2024-04-26 |
|
metamate
|
public |
metaMATE: your metabarcoding friend!
|
2024-04-26 |
|
sequenoscope
|
public |
sequenoscope is a versatile bioinformatic pipeline for the analysis of sequencing data.
|
2024-04-25 |
|
astral-tree
|
public |
ASTRAL is a tool for estimating an unrooted species tree given a set of unrooted gene trees.
|
2024-04-25 |
|
tajimas_d
|
public |
Computes Tajimas D, the Pi- or Watterson-Estimator for multiple sequences.
|
2024-04-25 |
|
ppx
|
public |
A Python interface to proteomics data repositories
|
2024-04-25 |
|
pyensembl
|
public |
Python interface to ensembl reference genome metadata
|
2024-04-25 |
|
gemini
|
public |
a lightweight db framework for disease and population genetics.
|
2024-04-25 |
|
primers
|
public |
This is a small, straightforward tool for creating PCR primers. Its target use-case is DNA assembly.
|
2024-04-24 |
|
phynteny
|
public |
Phynteny: Synteny-based prediction of bacteriophage genes
|
2024-04-24 |
|
tracknado
|
public |
CLI library to generate UCSC trackhubs from sequencing data
|
2024-04-24 |
|
shiver
|
public |
SHIVER - Sequences from HIV Easily Reconstructed
|
2024-04-24 |
|
cdbtools
|
public |
CDB (Constant DataBase) indexing and retrieval tools for FASTA files
|
2024-04-24 |
|
goleft
|
public |
goleft is a collection of bioinformatics tools distributed under MIT license in a single static binary
|
2024-04-22 |
|
exonerate
|
public |
Exonerate - A generic tool for pairwise sequence comparison / alignment
|
2024-04-21 |
|
trackhub
|
public |
Create and manage UCSC track hubs from Python
|
2024-04-21 |
|
pypgatk
|
public |
The Pypgatk framework and library provides a set of tools to perform ProteoGenomics Analysis.
|
2024-04-20 |
|
peka
|
public |
Analysis of kmers located around locations of interest
|
2024-04-19 |
|
rnamining
|
public |
Package to predict potential coding of RNA sequences provided in fasta format
|
2024-04-19 |
|
rust-bio-tools
|
public |
A growing collection of fast and secure command line utilities for dealing with NGS data
implemented on top of Rust-Bio.
|
2024-04-19 |
|
vcfanno
|
public |
annotate a VCF with other VCFs/BEDs/tabixed files
|
2024-04-19 |
